Ribosomal protein S13



Ribosomal protein S13 (RPS13) is one of the 22 proteins which belong to the small subunit of the bacterial ribosome. It is involved in binding to fMet-tRNA and hence to the translation initiation step. The images at the left and at the right correspond to one representative RPS13, i.e. the crystal structure of Ribosomal protein S13 from Thermus thermophilus (2zm6, chain M).

3D Structures of Ribosomal protein S13
Update June 2011

S13 in small ribosomal subunit
2zm6, 1n36, 1j5e, 3oto - TtRPS13 in 30S ribosomal subunit+THX+16S RRNA – Thermus thermophilus

2vqe, 2vqf, 2uuc, 2e5l, 2uu9, 2uua, 2uub, 3pyn, 3pyq, 3pys, 3pyu - TtRPS13 in 30S ribosomal subunit+16S RRNA+RNA fragment

3kc4 – EcRPS13 in 30S ribosomal subunit – Escherichia coli

3i1m, 3i1o, 3df1, 3df3, 2vho, 2vhp, 2avy, 2aw7, 1pnx, 3or9, 3ora - EcRPS13 in 30S ribosomal subunit+16S RRNA

1i94, 1fka - TtRPS13 in 30S ribosomal subunit+16S RRNA

1p87, 1p6g - EcRPS13 in 30S ribosomal subunit+16S RRNA – Cryo-EM 3bbn - RPS13 in 30S ribosomal subunit+16S RRNA – Cryo-EM – spinach

S13 in small + large ribosomal subunit
1ml5 - EcRPS13 in 30S ribosomal subunit+50S ribosomal subunit+THX+chain release factor 2+P-site tRNA+tRNA Phe+mRNA fragment+23S RRNA+5S RRNA+16S RRNA - EM

S13 in small ribosomal subunit+ chain release factor
3mr8, 3ms0 – TtRPS13 in 30S ribosomal subunit+THX+chain release factor 1+P-site tRNA+mRNA+16S RRNA

3d5a, 3d5c - TtRPS13 in 30S ribosomal subunit+THX+chain release factor 1+P-site tRNA+E-site tRNA+mRNA +16S RRNA

2b64 - TtRPS13 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA Phe+mRNA +16S RRNA+chain release factor 1

2b9m - TtRPS13 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA Phe+mRNA +16S RRNA+chain release factor 2

2x9r, 2x9t, 2wh1, 2wh3 - TtRPS13 in 30S ribosomal subunit+THX+chain release factor 2+P-site tRNA+mRNA +16S RRNA

3f1e, 3f1g - TtRPS13 in 30S ribosomal subunit+THX+chain release factor 2+P-site tRNA+E-site tRNA +16S RRNA

S13 in small ribosomal subunit+tRNA+mRNA
2hgi - TtRPS13 in 30S ribosomal subunit+16S RRNA+tRNA Phe+tRNA fMet

2hgp - TtRPS13 in 30S ribosomal subunit+16S RRNA+tRNA Phe+mRNA

2i2p, 2i2u - EcRPS13 in 30S ribosomal subunit+16S RRNA+tRNA Phe+mRNA

2hgr - TtRPS13 in 30S ribosomal subunit+16S RRNA+tRNA Phe+tRNA fMet+mRNA

1yl4 – TtRPS13 in 30S ribosomal subunit+ tRNA Phe+16S RRNA+THRS mRNA operator

1pns - EcRPS13 in 30S ribosomal subunit+ tRNA Phe+16S RRNA+mRNA

1xnq, 1xnr - TtRPS13 in 30S ribosomal subunit+THX+mRNA+tRNA anticodon+16S RRNA

S13 in small ribosomal subunit+A-site tRNA
2uxd, 2uxc - TtRPS13 in 30S ribosomal subunit+THX+A-site mRNA CGGG+tRNA anticodon+16S RRNA

1n32, 1n33 - TtRPS13 in 30S ribosomal subunit+THX+A-site mRNA fragment+tRNA anticodon+16S RRNA

1n34 - TtRPS13 in 30S ribosomal subunit+THX+A-site mRNA fragment +16S RRNA

1xmo, 1xmq - TtRPS13 in 30S ribosomal subunit+THX+A-site mRNA+tRNA anticodon+16S RRNA

2uxb - TtRPS13 in 30S ribosomal subunit+THX+A-site mRNA GGGU+tRNA anticodon+16S RRNA

S13 in small ribosomal subunit+P-site tRNA
3i8g - TtRPS13 in 30S ribosomal subunit+P-site tRNA+mRNA +16S RRNA

3i8h, 3i9b, 3i9d - TtRPS13 in 30S ribosomal subunit+THX+P-site tRNA+mRNA +16S RRNA

1ibk - TtRPS13 in 30S ribosomal subunit+THX+P-site mRNA fragment +16S RRNA

2wwl - EcRPS13 in 30S ribosomal subunit+Poly-Ala chain+P-site tRNA+mRNA +16S RRNA - Escherichia coli

3i1q - EcRPS13 in 30S ribosomal subunit+P-site tRNA hairpin+mRNA

3i1s, 3i1z, 3i21 - EcRPS12 in 30S ribosomal subunit+P-site tRNA hairpin+mRNA +16S RNA

S13 in small ribosomal subunit+A-site tRNA+P-site tRNA
1ibl, 1ibm - TtRPS13 in 30S ribosomal subunit+THX+A-site mRNA fragment+P-site mRNA fragment+tRNA anticodon+16S RRNA

S13 in small ribosomal subunit+P-site tRNA+E-site tRNA
2ow8 - TtRPS13 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA+mRNA +16S RRNA

2b9o - TtRPS13 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA Phe+mRNA +16S RRNA

2qnh - TtRPS13 in 30S ribosomal subunit+THX+P-site tRNA+E-site tRNA+mRNA +16S RRNA

S13 in small ribosomal subunit+A-site tRNA+P-site tRNA+E-site tRNA
2gy9, 2gyb - EcRPS13 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA – Cryo-EM

1jgo, 1jgp, 1jgq, 1gix - TtRPS13 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+tRNA Phe+mRNA +16S RRNA

3e1a, 3e1c - EcRPS13 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA

S13 in small ribosomal subunit + antibiotics
1i95, 1i97, 2hhh,  2f4v, 3oge, 3ogy, 3ohc, 3ohd, 3ohy, 3oi0, 3oi2, 3oi4    -  TtRPS13 in 30S ribosomal subunit+16S RRNA+antibiotic

1hnw, 1hnx, 1hnz,  1fjg - TtRPS13 in 30S ribosomal subunit+16S RRNA+mRNA fragment+antibiotic

2qbb, 2qb9, 1vs5, 1vs7,  2qan,  2qal,  2qou,  2qow,  2qoy,  2qp0,  2z4k,  2z4m, 3oaq, 3oar, 3ofa, 3ofb, 3ofo, 3ofp, 3ofx, 3ofy - EcRPS13 in 30S ribosomal subunit+16S RRNA+antibiotic

2j00, 2j02 - TtRPS13 in 30S ribosomal subunit+16S RRNA+paromomycin+P-site tRNA fMet+E-site tRNA Phe+mRNA

2wdg, 2wdh, 2wdk, 2wdm - TtRPS13 in 30S ribosomal subunit+THX+P-site tRNA+E-site tRNA+mRNA +16S RRNA+tRNA Phe+paromomycin

3knj, 3knh - TtRPS13 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA+viomycin

3knl, 3knn - TtRPS13 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA+capreomycin

S13 in small ribosomal subunit + ribosome recycling factor
2qbd, 2qbf – EcRPS13 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor

3r8n, 3r8o – EcRPS12 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor + mRNA + tRNA

2qbh, 2qbj - EcRPS13 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor+gentamicin

2v46, 2v48 - TtRPS13 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor+P-site tRNA Phe+mRNA+tRNA fMet

S13 in small ribosomal subunit + elongation factor
2wri, 2wrk - TtRPS13 in 30S ribosomal subunit+THX+P-site tRNA+mRNA +16S RRNA+elongation factor G

2wrn, 2wrq - TtRPS13 in 30S ribosomal subunit+THX+A-site tRNA+mRNA +16S RRNA+elongation factor TU-4

3fic - TtRPS13 in 30S ribosomal subunit+THX+A-site tRNA+P-site tRNA+E-site tRNA+mRNA codon+16S RRNA+elongation factor TU-A

3izv – EcRPS13 in 30S ribosomal subunit+A/T-site tRNA Phe +16S RRNA+elongation factor TU

3izw – EcRPS13 in 30S ribosomal subunit+A-site tRNA Phe +mRNA +16S RRNA+elongation factor TU

2y0u, 2y0w,  2y0y,  2y10,  2y12, 2y14, 2y16, 2y18 - TtRPS13 in 30S subunit+THX+A-site tRNA+E-site tRNA+mRNA codon+16S RRNA+elongation factor TU

3fih - EcRPS13 in 30S ribosomal subunit+A-site tRNA Phe+P-site tRNA+mRNA +16S RRNA+elongation factor TU

3huw, 3huy - TtRPS13 in 30S ribosomal subunit+THX+tRNA-Met+mRNA +16S RRNA+elongation factor P

1mj1 – EcRPS13+EcRPS12+EcRPL11+16S RRNA fragment+23S RRNA fragment+tRNA Phe+elongation factor TU – Cryo-EM

1s1h - yRPS13 in 40S ribosomal subunit+18S RRNA+elongation factor 2 – Cryo-EM – yeast

S13 in small ribosomal subunit + translation initiation factor
1i96 - TtRPS13 in 30S ribosomal subunit+THX+IF3+16S RRNA

1hr0 - TtRPS13 in 30S ribosomal subunit+THX+IF+16S RRNA

S13 in small ribosomal subunit + various proteins
3kiq, 3kis, 3kiu, 3kix - TtRPS13 in 30S ribosomal subunit+toxin RelE+16S RRNA

1voq, 1vos, 1vov, 1vox, 1voz - EcRPS13 in 30S ribosomal subunit+protein Y+16S RRNA

2xfz, 2xg1 - TtRPS13 in 30S ribosomal subunit+tRNA Phe+mRNA+colicin E3+16S RRNA

3jyv - RPS13+RPS0+RPS2+RPS3+RPS5+RPS9+RPS11+RPS14+RPS15+RPS16+RPS18+RPS20+RPS22+RPS23+RPS29+18S RRNA+RACK1+S19E+tRNA – Cryo-EM - Thermomyces lanuginosus

3j00 – EcRPS13 + 16S RRNA + FTSQ + apolipoprotein A-I

S13 in small 40S ribosomal subunit + various proteins
2zkq – RPS13 in 40S ribosomal subunit+RRNA fragments+RACK1+18S RRNA – dog – Cryo-EM

3iz6 - RPS13 in 40S ribosomal subunit +RACK1+18S RRNA – wheat – Cryo-EM

2o2z, 3o30 - yRPS13 in 40S ribosomal subunit +RACK1

S13 in part of small ribosomal subunit
2r1g – TtRPS13+ TtRPS9+ TtRPS12+ 16S RRNA fragment

3iyx, 3iyy - EcRPS13+ EcRPL5+ EcRPL31 – Cryo-EM

1ysh - RPS13+ RPL30+ RPL37+RNA fragments – Cryo-EM – Triticum aestivum